1I1Y Immune System date Apr 16, 1999
title Crystal Structure Of Human Class I Mhc (Hla-A2.1) Complexed 2-Microglobulin And Hiv-Rt Variant Peptide I1y
authors T.J.Kirksey, E.J.Collins
compound source
Molecule: Class I Histocompatibility Antigen
Chain: A, D
Fragment: Peptide-Binding Domain + Alpha3
Synonym: Hla-A2.1
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cellular_location: Cytoplasm
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Plyss
Expression_system_cellular_location: Inclusion Bodies
Expression_system_vector_type: Plasmid
Expression_system_vector: E.Coli
Expression_system_plasmid: Plm1

Molecule: Beta 2-Microglobulin
Chain: B, E
Fragment: Beta 2-Microglobulin
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cellular_location: Cytoplasm
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Plyss
Expression_system_cellular_location: Inclusion Body
Expression_system_vector_type: Plasmid
Expression_system_vector: E.Coli
Expression_system_plasmid: Plm1

Molecule: Hiv-Rt Variant Peptide I1y (Ylkepvhgv)
Chain: C, F
Fragment: Residues 309-317
Synonym: I1y
Engineered: Yes
Mutation: Yes
Synthetic: Yes
symmetry Space Group: P 1
R_factor 0.233 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.613 63.591 75.326 81.93 75.94 78.00
method X-Ray Diffractionresolution 2.20 Å
related structures by homologous chain: 1I7R, 1S9W, 3FRU
Gene
Ontology
ChainFunctionProcessComponent
E, B
  • cellular response to iron io...

    • Primary referenceThe structural basis for the increased immunogenicity of two HIV-reverse transcriptase peptide variant/class I major histocompatibility complexes., Kirksey TJ, Pogue-Caley RR, Frelinger JA, Collins EJ, J Biol Chem 1999 Dec 24;274(52):37259-64. PMID:10601290
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (133 Kb) [Save to disk]
  • Biological Unit Coordinates (1i1y.pdb1.gz) 65 Kb
  • Biological Unit Coordinates (1i1y.pdb2.gz) 66 Kb
  • CSU: Contacts of Structural Units for 1I1Y
  • Likely Quarternary Molecular Structure file(s) for 1I1Y
  • Structure Factors (324 Kb)
  • Retrieve 1I1Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1I1Y from S2C, [Save to disk]
  • Re-refined 1i1y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1I1Y in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 1I1Y
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1I1Y, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1i1ya2, region A:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1i1ya1, region A:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1i1yb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1i1yd2, region D:1-181 [Jmol] [rasmolscript] [script source]
        - Domain d1i1yd1, region D:182-275 [Jmol] [rasmolscript] [script source]
        - Domain d1i1ye_, region E [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1i1y_E] [1i1y_A] [1i1y_D] [1i1y_F] [1i1y_C] [1i1y] [1i1y_B]
  • SWISS-PROT database: [P01892] [P61769]
  • Domain organization of [1A02_HUMAN] [B2MG_HUMAN] by SWISSPFAM
  • Domain found in 1I1Y: [IGc1 ] by SMART
    • Other resources with information on 1I1Y
  • Community annotation for 1I1Y at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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